Answers blowing in the wind: Detection of birds, mammals, and amphibians with airborne environmental DNA in a natural environment over a yearlong survey

Environmental DNA, Journal Year: 2023, Volume and Issue: 5(2), P. 375 - 387

Published: Jan. 20, 2023

Abstract Analysis of environmental DNA (eDNA) from passively collected airborne dust has demonstrated broad success for sensitive and robust detection plants. Recent experiments at small spatial scales have suggested that animals can also be detected using eDNA. However, eDNA analysis never been used a long‐term whole‐community assessment natural terrestrial community or with passive collectors. We conducted metabarcoding survey targeting vertebrate carried in the air on an approximately 130‐acre shortgrass prairie over course year. Our wide variety animal forms including amphibian species, several bird both large mammals. found signals changed known patterns activity, wind speed, rainfall. Overall, we demonstrate carries could to detect species environment minimal effort. To develop this as valuable monitoring tool, research needs focus ecology air, which includes origin, state, transport, dispersal, fate environment.

Language: Английский

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Utilizing the state of environmental DNA (eDNA) to incorporate time-scale information into eDNA analysis

Proceedings of the Royal Society B Biological Sciences, Journal Year: 2023, Volume and Issue: 290(1999)

Published: May 30, 2023

Environmental DNA (eDNA) analysis allows cost-effective and non-destructive biomonitoring with a high detection sensitivity in terrestrial aquatic environments. However, the eDNA results can sometimes include false-positive inferences of target organisms owing to aged that has long since been released from individual is more likely be detected at site further away its source. In order address issue, this manuscript focuses on state eDNA, proposing new methodologies estimate age eDNA: (1) damage rate, (2) particle size distribution, (3) viable cell-derived eDNA. addition, also shorter persistence environmental RNA (eRNA) compared highlighting application eRNA nucleic acid ratio for assessing genetic materials water. Although substantial research essential support feasibility these methodologies, incorporating time-scale information into would update current analysis, improve accuracy reliability eDNA-based monitoring, refine as useful monitoring tool ecology, fisheries various sciences.

Language: Английский

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eDNA metabarcoding enriches traditional trawl survey data for monitoring biodiversity in the marine environment

ICES Journal of Marine Science, Journal Year: 2023, Volume and Issue: 80(5), P. 1529 - 1538

Published: May 25, 2023

Abstract Marine Protected Areas require comprehensive monitoring to ensure objectives are achieved; however, natural ecosystems at scale is challenged by the biodiversity it aims measure. Environmental DNA (eDNA) metabarcoding holds promise address this challenge. We conducted paired sampling 54 sites for fish and invertebrate assemblages in Northwest Atlantic using groundfish trawls eDNA of benthic seawater four genetic markers (12S rRNA, 16S 18S CO1). Compared trawling, detected similar patterns species turnover, larger estimates gamma diversity, smaller alpha diversity. A total 63.6% (42/66) captured trawling were eDNA, along with an additional 26 species. Of 24 missed detections 12 inevitable as they lacked reference sequences. Excluding taxa assigned higher than level those without a name, 23.6% (17/72) CO1, which 98 demonstrate that capable detecting community assemblage turnover offshore environment, emphasizing its strong potential non-invasive, comprehensive, scalable tool supporting marine conservation programmes.

Language: Английский

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A review of data collection methods used to monitor the associations of wild species with marine aquaculture sites

Reviews in Aquaculture, Journal Year: 2024, Volume and Issue: 16(3), P. 1160 - 1185

Published: Jan. 25, 2024

Abstract Aquaculture contributes a significant portion of the global aquatic biomass destined for human consumption. Bivalve and marine finfish aquaculture operations require sea‐based farm sites that result in considerable interactions with natural environment. The addition feed waste physical structures (e.g., net pens longline mussel culture) can provide an attractive artificial reef many species studies have shown both positive negative effects on surrounding ecosystem due to wild sites. Assessing these be complex, depending local ecosystem, several monitoring techniques been used accurately determine associations decapods farms. In this review, we assessed main methods monitor aquaculture‐ecosystem interactions. advantages disadvantages each technique are discussed suggestions mitigate shortfalls future outlined. It was evident combining methodologies should prioritised lessen impact identified weaknesses any given approach. Designing complementary approaches may help attain robust data further understand underlying proximate mechanisms.

Language: Английский

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Innovative and practical tools for monitoring and assessing biodiversity status and impacts of multiple human pressures in marine systems

Environmental Monitoring and Assessment, Journal Year: 2024, Volume and Issue: 196(8)

Published: July 4, 2024

Language: Английский

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Warm temperature and alkaline conditions accelerate environmental RNA degradation

Environmental DNA, Journal Year: 2022, Volume and Issue: 5(5), P. 836 - 848

Published: July 15, 2022

Abstract Recent developments in environmental DNA (eDNA) analysis allow more rapid and extensive biomonitoring than traditional capture‐based surveys do. However, detection of eDNA not derived from living organisms may lead to false‐positive inferences species presence. Such limitations be overcome by utilizing RNA molecules present the environment (environmental [eRNA]) because their physiochemical instability. Nevertheless, performance eRNA remains unclarified substantial lack knowledge regarding basic properties, such as its persistence degradation mechanisms. Here, we performed a factorial aquarium experiment assess effects water temperature (10, 20, 30°C) pH (4, 7, 10) conditions on zebrafish ( Danio rerio ) eRNA, targeting mitochondrial cytochrome b (CytB) nuclear beta‐2‐microglobulin (b2m) genes. A linear mixed‐model showed that was significantly faster eDNA. Higher temperatures promoted both degradation, alkaline substantially but degradation. This might explained physicochemical characteristics molecules, membranous structure surrounding them, susceptibility microbial activity. Moreover, relative concentrations decreased over time, inferring ratio can used for estimating elapsed time since genomic material released freshness target signal field. given confidence intervals decay rates tended overlap each treatment level, this study indicates fish is always degraded rapidly is, fact, abundant previously expected. result favors application indicate biotic assemblages.

Language: Английский

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Plant–animal interactions in the era of environmental DNA (eDNA)—A review

Environmental DNA, Journal Year: 2022, Volume and Issue: 4(5), P. 987 - 999

Published: May 21, 2022

Abstract Plant–animal interactions (PAI) represent major channels of energy transfer through ecosystems, where both positive and antagonistic simultaneously contribute to ecosystem functioning. Monitoring PAI therefore increases the understanding environmental health, integrity, functioning, studying complex accurate, cost‐effective sampling can aid in management detrimental anthropogenic impacts. Environmental DNA (eDNA)‐based monitoring represents an increasingly common, nondestructive approach for biodiversity monitoring, which could help elucidate PAI. Here, we aim provide overall discussion on potential using eDNA study We assessed existing literature this subject from 2009 2021 a freely accessible web search tool. The was conducted by keywords involving PAI, including species‐specific metabarcoding approaches, recovering 43 studies. summarized advantages current limitations such outline research priorities improve future eDNA‐based methods analysis. Among studies identified measure as pollination, herbivory, mutualistic, parasitic relationships, they have often higher taxonomic diversity several direct comparisons with DNA‐based gut/bulk conventional survey methods. Research needs include following: better influencing factors detection involved (e.g., degradation, origin, types), methodological standardization (sampling primer development), more inclusive sequence reference databases. If these are addressed, it will significant impact enable eDNA. In future, implementation particularly benefit scalability biomonitoring surveys that imperative health assessments.

Language: Английский

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Environmental DNA analysis as an emerging non-destructive method for plant biodiversity monitoring: a review

AoB Plants, Journal Year: 2022, Volume and Issue: 14(4)

Published: July 2, 2022

Abstract Environmental DNA (eDNA) analysis has recently transformed and modernized biodiversity monitoring. The accurate detection, to some extent quantification, of organisms (individuals/populations/communities) in environmental samples is galvanizing eDNA as a successful cost time-efficient biomonitoring technique. Currently, eDNA’s application plants remains more limited implementation scope compared animals microorganisms. This review evaluates the development eDNA-based methods for (vascular) plants, comparing its performance power detection with that traditional methods, critically evaluate advise best-practices needed innovate plant biomonitoring. Recent advancements, standardization field applications have provided enough utilize it conservation biology numerous organisms. Despite our demonstrating only 13% all studies focus on taxa date, considerable potential where invasive, endangered rare species, community-level interpretations proof-of-concept. Monitoring using were found be equal or effective than methods; however, species increased when both coupled. Additionally, studying interactions, community dynamics even effects anthropogenic pressure. elimination obstacles (e.g. lack relevant reference libraries plants) user-friendly protocols would greatly contribute comprehensive monitoring programs. particularly data-depauperate tropics groups (e.g., Bryophytes Pteridophytes). We further advocate coupling approaches, former often cheaper methodologically straightforward, while latter offers non-destructive approaches discrimination ability. Furthermore, make global platform eDNA, governmental academic-industrial collaborations are essential surveys broadly adopted implemented, rapid, cost-effective non-invasive approach.

Language: Английский

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Sorting states of environmental DNA: Effects of isolation method and water matrix on the recovery of membrane‐bound, dissolved, and adsorbed states of eDNA

Environmental DNA, Journal Year: 2023, Volume and Issue: 5(3), P. 582 - 596

Published: April 10, 2023

Abstract Environmental DNA (eDNA) once shed can exist in numerous states with varying behaviors including degradation rates and transport potential. In this study, we consider three of eDNA: (1) a membrane‐bound state referring to enveloped cellular or organellar membrane, (2) dissolved defined as the extracellular molecule environment without any interaction other particles, (3) an adsorbed particle surface environment. Capturing, isolating, analyzing target eDNA provides utility for better interpretation While methods separating different have been developed, they remain poorly evaluated due lack state‐controlled experimentation. We from single sample by spiking species represent state‐specific controls. used chicken state, cultured mouse cells salmon clay particles state. performed separation water matrices, two environmental one synthetic, spiked states. The was only that isolated minimal contamination nontarget also had highest recovery (54.11 ± 19.24%), followed (5.08 2.28%), lowest total (2.21 2.36%). This study highlights potential sort independently analyze them more informed biodiversity assessments. However, further method development is needed improve reduce cross‐contamination.

Language: Английский

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Vertical and horizontal environmental DNA (eDNA) patterns of fish in a shallow and well-mixed North Sea area

Scientific Reports, Journal Year: 2024, Volume and Issue: 14(1)

Published: July 20, 2024

The integration of eDNA metabarcoding into monitoring programs provides valuable information about fish community structures. Despite the growing body evidence supporting method's effectiveness in distinguishing fine-scale signals, there is a limited understanding distribution shallow, well-mixed environments, especially related to sampling depth. We analyzed 167 samples collected from surface and bottom water at 17 locations Belgian Part North Sea (BPNS), where deepest point was 31 m, compared this beam trawl catch data simultaneously same locations. identified an additional 22 species data. Diversity measures patterns were very similar between revealed that previously described by long-term Surface had 39 common, while six eight rare uniquely detected, respectively. Our results demonstrate effectively identifies spatial fishes highly dynamic environment BPNS regardless Out most common tested, read abundances correlated strongly with catch-based abundance for one species, but moderately two others, indicating inferring biomass via remains challenging.

Language: Английский

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